Repository logo

Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro

Published version

Change log


Garcia-Alonso, Luz 
Handfield, Louis-François 
Nikolakopoulou, Konstantina  ORCID logo
Fernando, Ridma C. 


Abstract: The endometrium, the mucosal lining of the uterus, undergoes dynamic changes throughout the menstrual cycle in response to ovarian hormones. We have generated dense single-cell and spatial reference maps of the human uterus and three-dimensional endometrial organoid cultures. We dissect the signaling pathways that determine cell fate of the epithelial lineages in the lumenal and glandular microenvironments. Our benchmark of the endometrial organoids reveals the pathways and cell states regulating differentiation of the secretory and ciliated lineages both in vivo and in vitro. In vitro downregulation of WNT or NOTCH pathways increases the differentiation efficiency along the secretory and ciliated lineages, respectively. We utilize our cellular maps to deconvolute bulk data from endometrial cancers and endometriotic lesions, illuminating the cell types dominating in each of these disorders. These mechanistic insights provide a platform for future development of treatments for common conditions including endometriosis and endometrial carcinoma.



Article, /631/80, /631/45, article

Journal Title

Nature Genetics

Conference Name

Journal ISSN


Volume Title



Nature Publishing Group US
Wellcome Trust (Wellcome) (211276/Z/18/Z, WT206194, 200841/Z/16/Z, 211276/Z/18/Z, WT206194)
EC | EU Framework Programme for Research and Innovation H2020 | H2020 European Institute of Innovation and Technology (H2020 The European Institute of Innovation and Technology) (874867)
RCUK | Medical Research Council (MRC) (MR/S036350/1, MR/S036350/1)
Jean Shanks Foundation (No 1175)
Royal Society (DH160216, RG93116)